Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 63 of 93
Found at i:8688478 original size:4 final size:4
Alignment explanation
Indices: 8688469--8688497 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
8688459 TCTCCTTCTC
8688469 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
8688498 TTAACATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:8701230 original size:2 final size:2
Alignment explanation
Indices: 8701223--8701259 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
8701213 GACATCTATT
8701223 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
8701260 TACGCGGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8701870 original size:14 final size:14
Alignment explanation
Indices: 8701853--8701880 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8701843 TGAAAAAAAA
8701853 AATATTTTTTTCTT
1 AATATTTTTTTCTT
8701867 AATATTTTTTTCTT
1 AATATTTTTTTCTT
8701881 TCATTTAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (14 bp):
AATATTTTTTTCTT
Found at i:8708781 original size:44 final size:45
Alignment explanation
Indices: 8708683--8708782 Score: 132
Period size: 44 Copynumber: 2.3 Consensus size: 45
8708673 ATTATAGACT
* * *
8708683 ATATATATAATCTAACATTATAATGTATGATTGATTTTATAATAA
1 ATATATAAAATCTAACATTATAATGTATGATTAATCTTATAATAA
* * *
8708728 AAACA-AAAATCTAACATTATAATGTATTATTAATCTTAT-ATAA
1 ATATATAAAATCTAACATTATAATGTATGATTAATCTTATAATAA
8708771 ATATATAAAATC
1 ATATATAAAATC
8708783 ATTATATTAT
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
43 7 0.15
44 36 0.78
45 3 0.07
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (45 bp):
ATATATAAAATCTAACATTATAATGTATGATTAATCTTATAATAA
Found at i:8709479 original size:28 final size:29
Alignment explanation
Indices: 8709446--8709502 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
8709436 ATTAATGAAT
*
8709446 AAATTTAT-AATTCAAATATCATATTAAA
1 AAATTTATAAATTCAAATATCACATTAAA
* *
8709474 AAATTTTTAAATTTAAATATCACATTAAA
1 AAATTTATAAATTCAAATATCACATTAAA
8709503 TATTTTATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (29 bp):
AAATTTATAAATTCAAATATCACATTAAA
Found at i:8710554 original size:17 final size:17
Alignment explanation
Indices: 8710522--8710556 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8710512 GATGAGATAA
* *
8710522 AAAAATAATTATATTAG
1 AAAAATAATAACATTAG
8710539 AAAAATAATAACATTAG
1 AAAAATAATAACATTAG
8710556 A
1 A
8710557 GATAGAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.29
Consensus pattern (17 bp):
AAAAATAATAACATTAG
Found at i:8712005 original size:13 final size:13
Alignment explanation
Indices: 8711975--8711999 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8711965 AAAAAACCCA
8711975 AAAAAATGAAAAC
1 AAAAAATGAAAAC
8711988 AAAAAATGAAAA
1 AAAAAATGAAAA
8712000 GGAAAAGATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.04, G:0.08, T:0.08
Consensus pattern (13 bp):
AAAAAATGAAAAC
Found at i:8715141 original size:11 final size:10
Alignment explanation
Indices: 8715125--8715192 Score: 55
Period size: 11 Copynumber: 6.4 Consensus size: 10
8715115 TTTAAAAGGG
8715125 AAAAAAAGAGA
1 AAAAAAAGA-A
*
8715136 AAAAAAGGAA
1 AAAAAAAGAA
8715146 AAAGAAAAGAA
1 AAA-AAAAGAA
* **
8715157 AGATCAAGAA
1 AAAAAAAGAA
*
8715167 AAAAAAACAA
1 AAAAAAAGAA
8715177 AAAGAATAAGAA
1 AAA-AA-AAGAA
8715189 AAAA
1 AAAA
8715193 TGCATGTTTT
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
10 18 0.41
11 19 0.43
12 7 0.16
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:8715156 original size:20 final size:19
Alignment explanation
Indices: 8715118--8715179 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
8715108 AGTACATTTT
* *
8715118 AAAAGGGAAAAAAAGAGAA
1 AAAAAGGAAAAAAAAAGAA
8715137 AAAAAGGAAAAAGAAAAGAA
1 AAAAAGGAAAAA-AAAAGAA
* *
8715157 AGATCAA-GAAAAAAAAACAA
1 A-A-AAAGGAAAAAAAAAGAA
8715177 AAA
1 AAA
8715180 GAATAAGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
19 12 0.34
20 14 0.40
21 7 0.20
22 2 0.06
ACGTcount: A:0.77, C:0.03, G:0.18, T:0.02
Consensus pattern (19 bp):
AAAAAGGAAAAAAAAAGAA
Found at i:8716245 original size:23 final size:24
Alignment explanation
Indices: 8716196--8716243 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
8716186 CACTGCCGTC
8716196 TATGTACATTCGTTCCTGTTTTTT
1 TATGTACATTCGTTCCTGTTTTTT
8716220 TATGTACATTCGTTCCTGTTTTTT
1 TATGTACATTCGTTCCTGTTTTTT
8716244 ATAAATTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.17, G:0.12, T:0.58
Consensus pattern (24 bp):
TATGTACATTCGTTCCTGTTTTTT
Found at i:8732461 original size:44 final size:44
Alignment explanation
Indices: 8732405--8732495 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
8732395 AATAACTGTC
* *
8732405 AATCCCGAAATCATATCTTTCATTATTTAAACTTTTCTAACTCT
1 AATCCCGAAATCATATCTCTCATTATTTAAACATTTCTAACTCT
* *
8732449 AATCCTGAAATCATATCTCTCATTATTTATACATTTCTAACTCT
1 AATCCCGAAATCATATCTCTCATTATTTAAACATTTCTAACTCT
8732493 AAT
1 AAT
8732496 ATTCTCAGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.33, C:0.22, G:0.02, T:0.43
Consensus pattern (44 bp):
AATCCCGAAATCATATCTCTCATTATTTAAACATTTCTAACTCT
Found at i:8737728 original size:2 final size:2
Alignment explanation
Indices: 8737723--8737756 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
8737713 ACACACATGC
*
8737723 AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8737757 GTATGTATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8740562 original size:31 final size:31
Alignment explanation
Indices: 8740524--8740585 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
8740514 TATCCATATT
*
8740524 TGGATATCTAATATTGTTTAAAAAACTTAAA
1 TGGATATCGAATATTGTTTAAAAAACTTAAA
*
8740555 TGGATATCGGATATTGTTTAAAAAACTTAAA
1 TGGATATCGAATATTGTTTAAAAAACTTAAA
8740586 CAGATTCAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (31 bp):
TGGATATCGAATATTGTTTAAAAAACTTAAA
Found at i:8740598 original size:30 final size:31
Alignment explanation
Indices: 8740526--8740600 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
8740516 TCCATATTTG
**
8740526 GATATCTA-ATATTGTTTAAAAAACTTAAATG
1 GATATC-AGATATTGTTTAAAAAACTTAAACA
*
8740557 GATATCGGATATTGTTTAAAAAACTTAAACA
1 GATATCAGATATTGTTTAAAAAACTTAAACA
8740588 GAT-TCAGATATTG
1 GATATCAGATATTG
8740601 GATAACCAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
30 9 0.23
31 30 0.77
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (31 bp):
GATATCAGATATTGTTTAAAAAACTTAAACA
Found at i:8754300 original size:19 final size:18
Alignment explanation
Indices: 8754267--8754302 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
8754257 TAATATTAAG
*
8754267 TTCAAATTCAAGTTCAAT
1 TTCAAATTAAAGTTCAAT
8754285 TTCAAATTTAAAGTTCAA
1 TTCAAA-TTAAAGTTCAA
8754303 AATTTAGTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.39
Consensus pattern (18 bp):
TTCAAATTAAAGTTCAAT
Found at i:8754501 original size:10 final size:10
Alignment explanation
Indices: 8754477--8754506 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
8754467 TATTTTATCA
8754477 ATTAAAATA-
1 ATTAAAATAT
8754486 ATTAAAATAT
1 ATTAAAATAT
8754496 ATTAAAATAT
1 ATTAAAATAT
8754506 A
1 A
8754507 AAAATTCGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:8754842 original size:59 final size:61
Alignment explanation
Indices: 8754760--8754873 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 61
8754750 CACATATAAT
* * * *
8754760 TAATTGACGGTTTGCATA-ATT-TATATAAAATAATATAATTGTATTAGATGCATCACATA
1 TAATTGACGATTTACATATATTATATATAAAACAATATAATTGGATTAGATGCATCACATA
*
8754819 TAATTGACGATTTACATATTTTATATATAAAACAATATAATTGGATTAGATGCAT
1 TAATTGACGATTTACATATATTATATATAAAACAATATAATTGGATTAGATGCAT
8754874 AGCTTGCAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
59 16 0.33
60 2 0.04
61 30 0.62
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.39
Consensus pattern (61 bp):
TAATTGACGATTTACATATATTATATATAAAACAATATAATTGGATTAGATGCATCACATA
Found at i:8755221 original size:2 final size:2
Alignment explanation
Indices: 8755177--8755210 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
8755167 GTAGTTAATT
* *
8755177 TA TA TA TA TA TA TA TA TA TG TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8755211 CATTCTATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:8761423 original size:16 final size:16
Alignment explanation
Indices: 8761402--8761433 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8761392 ACATGATATG
8761402 ATAATATGATATAAAA
1 ATAATATGATATAAAA
*
8761418 ATAATATGATTTAAAA
1 ATAATATGATATAAAA
8761434 TTAAAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.34
Consensus pattern (16 bp):
ATAATATGATATAAAA
Found at i:8761457 original size:20 final size:20
Alignment explanation
Indices: 8761429--8761469 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
8761419 TAATATGATT
8761429 TAAAATTAA-AAAATTATAAA
1 TAAAATTAATAAAATTA-AAA
*
8761449 TAAATTTAATAAAATTAAAA
1 TAAAATTAATAAAATTAAAA
8761469 T
1 T
8761470 TTTATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAAATTAATAAAATTAAAA
Found at i:8763596 original size:5 final size:5
Alignment explanation
Indices: 8763582--8763624 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
8763572 GATATTTTTG
* *
8763582 CAAAG CAAAA CAAAA CCAAA -AAAA -AAAA CAAAA CAAAA CAAAA
1 CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA
8763625 AGGAAAAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
4 7 0.21
5 27 0.79
ACGTcount: A:0.79, C:0.19, G:0.02, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:8763611 original size:18 final size:18
Alignment explanation
Indices: 8763588--8763625 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
8763578 TTTGCAAAGC
8763588 AAAACAAAACCAAAA-AAA
1 AAAACAAAA-CAAAACAAA
8763606 AAAACAAAACAAAACAAA
1 AAAACAAAACAAAACAAA
8763624 AA
1 AA
8763626 GGAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAACAAAACAAAACAAA
Found at i:8763631 original size:28 final size:29
Alignment explanation
Indices: 8763582--8763638 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
8763572 GATATTTTTG
* *
8763582 CAAAGCAAAACAAAACCAAAAAA-AAAAA
1 CAAAACAAAACAAAAACAAAAAAGAAAAA
**
8763610 CAAAACAAAACAAAAAGGAAAAAGAAAAA
1 CAAAACAAAACAAAAACAAAAAAGAAAAA
8763639 AAGAAAAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.79, C:0.14, G:0.07, T:0.00
Consensus pattern (29 bp):
CAAAACAAAACAAAAACAAAAAAGAAAAA
Found at i:8765183 original size:23 final size:23
Alignment explanation
Indices: 8765157--8765204 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
8765147 ATTTCATCAA
8765157 AATTTAAAGCCCTAGATTTTGAG
1 AATTTAAAGCCCTAGATTTTGAG
8765180 AATTTAAAGCCCTAGATTTTGAG
1 AATTTAAAGCCCTAGATTTTGAG
8765203 AA
1 AA
8765205 GTATGATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (23 bp):
AATTTAAAGCCCTAGATTTTGAG
Found at i:8771037 original size:59 final size:57
Alignment explanation
Indices: 8770974--8771111 Score: 138
Period size: 59 Copynumber: 2.4 Consensus size: 57
8770964 GTTTGATATG
* * *
8770974 AAAAATGCTTTATATAATCTTGTTCA-ATTTTTGGGTATTATTTAAGGTGTTTTTTGCC
1 AAAAATGCTTTAAATAATCTTATTCATATTTTTGGG-ATTATTTAAGGTG-TTTTTACC
* * *
8771032 TAAAAA--CATCTTAAATAATATTATTCATTTTTTTTGGATTATTTAAGGTGTTTTTACC
1 -AAAAATGC-T-TTAAATAATCTTATTCATATTTTTGGGATTATTTAAGGTGTTTTTACC
*
8771090 AGAAAATGCTTTAAAAAATCTT
1 A-AAAATGCTTTAAATAATCTT
8771112 TTACAAAAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
57 2 0.03
58 22 0.34
59 33 0.51
60 8 0.12
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.47
Consensus pattern (57 bp):
AAAAATGCTTTAAATAATCTTATTCATATTTTTGGGATTATTTAAGGTGTTTTTACC
Found at i:8771964 original size:27 final size:25
Alignment explanation
Indices: 8771934--8771988 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 25
8771924 TTATTTTGAT
8771934 ATTTATTATTAATAAAAGTTAATAAAA
1 ATTTATTATT-ATAAAAGTTAA-AAAA
* *
8771961 ATTTATTATTATATATGTTAAAAAA
1 ATTTATTATTATAAAAGTTAAAAAA
8771986 ATT
1 ATT
8771989 ATAATAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 7 0.27
26 9 0.35
27 10 0.38
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (25 bp):
ATTTATTATTATAAAAGTTAAAAAA
Found at i:8772355 original size:10 final size:10
Alignment explanation
Indices: 8772340--8772364 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
8772330 CTAAGTTTTA
8772340 TTTTTTATTT
1 TTTTTTATTT
8772350 TTTTTTATTT
1 TTTTTTATTT
8772360 TTTTT
1 TTTTT
8772365 ACGAGTATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:8772993 original size:6 final size:6
Alignment explanation
Indices: 8772982--8773011 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
8772972 AGCAACCAAT
*
8772982 AAGAAA AAGAAA AAGAAA AGGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
8773012 TCCCAAGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:8785148 original size:19 final size:20
Alignment explanation
Indices: 8785124--8785162 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
8785114 TATTTATATA
*
8785124 TATTTAATAA-ATGAATTTT
1 TATTTAATAATATAAATTTT
8785143 TATTTAATAATATAAATTTT
1 TATTTAATAATATAAATTTT
8785163 ACTTTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
TATTTAATAATATAAATTTT
Found at i:8785168 original size:20 final size:19
Alignment explanation
Indices: 8785124--8785169 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
8785114 TATTTATATA
*
8785124 TATTTAATAAATGAATTTT
1 TATTTAATAAATGAAATTT
8785143 TATTTAATAATAT-AAATTT
1 TATTTAATAA-ATGAAATTT
8785162 TACTTTAA
1 TA-TTTAA
8785170 ATTAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
TATTTAATAAATGAAATTT
Found at i:8787290 original size:6 final size:7
Alignment explanation
Indices: 8787273--8787298 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8787263 TGATTTTCAC
8787273 AAAAAGG
1 AAAAAGG
8787280 AAAAAGG
1 AAAAAGG
8787287 AAAAAGG
1 AAAAAGG
8787294 AAAAA
1 AAAAA
8787299 TGTTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (7 bp):
AAAAAGG
Found at i:8801318 original size:21 final size:21
Alignment explanation
Indices: 8801286--8801329 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
8801276 ACATGAAATT
*
8801286 AATATAGTAAAACTATATTAA
1 AATATAGTAAAAATATATTAA
*
8801307 AATA-AGTAAAAAATTTATTAA
1 AATATAGT-AAAAATATATTAA
8801328 AA
1 AA
8801330 ATAATATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (21 bp):
AATATAGTAAAAATATATTAA
Found at i:8801739 original size:15 final size:15
Alignment explanation
Indices: 8801719--8801747 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8801709 TAGTTATAAA
8801719 TTATATTATTTTTAG
1 TTATATTATTTTTAG
8801734 TTATATTATTTTTA
1 TTATATTATTTTTA
8801748 ATAAATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
TTATATTATTTTTAG
Found at i:8802157 original size:31 final size:31
Alignment explanation
Indices: 8802116--8802190 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
8802106 TTAAAGGGAT
*
8802116 TAAA-TTTAAATTTCGTGTAAGTACAAAAAC
1 TAAATTTTAAATTTCATGTAAGTACAAAAAC
* * *
8802146 TAAATTTTAAATTTCATGTGAGTATAAAGAC
1 TAAATTTTAAATTTCATGTAAGTACAAAAAC
*
8802177 TAAATTTCAAATTT
1 TAAATTTTAAATTT
8802191 TTTATGAACA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 4 0.10
31 35 0.90
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.39
Consensus pattern (31 bp):
TAAATTTTAAATTTCATGTAAGTACAAAAAC
Found at i:8802333 original size:21 final size:19
Alignment explanation
Indices: 8802286--8802340 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 19
8802276 TAATATTACG
8802286 TTAGCATGGTCAACAGCCA
1 TTAGCATGGTCAACAGCCA
*
8802305 TGTCAGCATAGTCAACAGTCACA
1 T-T-AGCATGGTCAACAG-C-CA
8802328 TTAGCATGGTCAA
1 TTAGCATGGTCAA
8802341 TGGCCACGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 1 0.03
20 1 0.03
21 23 0.77
22 2 0.07
23 3 0.10
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (19 bp):
TTAGCATGGTCAACAGCCA
Found at i:8822493 original size:16 final size:16
Alignment explanation
Indices: 8822472--8822503 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8822462 TTCATTTAGC
*
8822472 TAGGCTTCTATATTTA
1 TAGGCTTCTAGATTTA
8822488 TAGGCTTCTAGATTTA
1 TAGGCTTCTAGATTTA
8822504 CTATATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.47
Consensus pattern (16 bp):
TAGGCTTCTAGATTTA
Found at i:8823693 original size:19 final size:19
Alignment explanation
Indices: 8823665--8823703 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
8823655 TAAATAGGTA
*
8823665 AAAAGGTTTTGAAAGATTT
1 AAAAGATTTTGAAAGATTT
*
8823684 AAAAGATTTTGAAGGATTT
1 AAAAGATTTTGAAAGATTT
8823703 A
1 A
8823704 GGGTTTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.36
Consensus pattern (19 bp):
AAAAGATTTTGAAAGATTT
Found at i:8824374 original size:30 final size:30
Alignment explanation
Indices: 8824316--8824418 Score: 108
Period size: 30 Copynumber: 3.6 Consensus size: 30
8824306 CATTCTATTA
*
8824316 TATTTAATTAAACCTTT--AA-ATT-TGTT
1 TATTTAATTAAACCTTTAAAATATTATTTT
*
8824342 TATCTAATTAAACCTTTAAAATATTATTTT
1 TATTTAATTAAACCTTTAAAATATTATTTT
* ** * *
8824372 TATTTAGTTAAAATTTTAAATTAGTATTTT
1 TATTTAATTAAACCTTTAAAATATTATTTT
8824402 TATTTAATTAAA-CTTTA
1 TATTTAATTAAACCTTTA
8824419 TGTTTCTAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
26 16 0.25
28 2 0.03
29 7 0.11
30 38 0.60
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (30 bp):
TATTTAATTAAACCTTTAAAATATTATTTT
Found at i:8827111 original size:18 final size:18
Alignment explanation
Indices: 8827074--8827111 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
8827064 TGCTTGATTC
**
8827074 TCCATTTCAATTTCTTTA
1 TCCATTTCAATTTCAATA
8827092 TCCATTTCAATTTCAATA
1 TCCATTTCAATTTCAATA
8827110 TC
1 TC
8827112 ATATATAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.24, G:0.00, T:0.50
Consensus pattern (18 bp):
TCCATTTCAATTTCAATA
Found at i:8828134 original size:20 final size:20
Alignment explanation
Indices: 8828109--8828167 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
8828099 CAGGTCCGGG
8828109 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
8828129 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
* *
8828149 CCCAGATCATTTGGGCCTG
1 CCCGGATCAATTGGGCCTG
8828168 CCCCAAATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.22
Consensus pattern (20 bp):
CCCGGATCAATTGGGCCTGA
Found at i:8828476 original size:11 final size:12
Alignment explanation
Indices: 8828456--8828488 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
8828446 TATCTAGATT
*
8828456 TTTTTTTTTTAA
1 TTTTTATTTTAA
8828468 -TTTTATTTTAA
1 TTTTTATTTTAA
8828479 TTTTTATTTT
1 TTTTTATTTT
8828489 GGAGGGCTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTATTTTAA
Found at i:8828839 original size:31 final size:31
Alignment explanation
Indices: 8828804--8828874 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
8828794 AATTTCCAGA
*
8828804 TTCCGGCGAAAATTCCGGCG-ACTTTTGAATT
1 TTCCGGCGAAAATTCCGGCGAAC-TTTGAAGT
* *
8828835 TTCCGGTGACAATTCCGGCGAACTTTGAAGT
1 TTCCGGCGAAAATTCCGGCGAACTTTGAAGT
8828866 TTCCGGCGA
1 TTCCGGCGA
8828875 CAGACCCAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 33 0.94
32 2 0.06
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.30
Consensus pattern (31 bp):
TTCCGGCGAAAATTCCGGCGAACTTTGAAGT
Found at i:8828962 original size:19 final size:19
Alignment explanation
Indices: 8828938--8828982 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
8828928 TCCGGCCAAT
8828938 TTCCGGCGAAATTCCCAGA
1 TTCCGGCGAAATTCCCAGA
*
8828957 TTCCGGCGAAATTTCCAGA
1 TTCCGGCGAAATTCCCAGA
*
8828976 ATCCGGC
1 TTCCGGC
8828983 ACCGGCGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.22
Consensus pattern (19 bp):
TTCCGGCGAAATTCCCAGA
Found at i:8829212 original size:5 final size:5
Alignment explanation
Indices: 8829202--8829244 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
8829192 TTCAGCCCCT
*
8829202 CCGAG CCGAG CCGAG CCGAG CCGAG CCGCA- CCAAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCGAG CCG-AG CCGAG CCGAG CCG
8829245 CGATCCGAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 1 0.03
5 32 0.94
6 1 0.03
ACGTcount: A:0.21, C:0.44, G:0.35, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:8829213 original size:15 final size:15
Alignment explanation
Indices: 8829202--8829256 Score: 67
Period size: 15 Copynumber: 3.5 Consensus size: 15
8829192 TTCAGCCCCT
8829202 CCGAGCCGAGCCG-A
1 CCGAGCCGAGCCGCA
8829216 GCCGAGCCGAGCCGCA
1 -CCGAGCCGAGCCGCA
*
8829232 CCAAGCCGAGCCGCGA
1 CCGAGCCGAGCCGC-A
8829248 TCCGAGCCG
1 -CCGAGCCG
8829257 CTCCAGGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 26 0.74
16 2 0.06
17 7 0.20
ACGTcount: A:0.20, C:0.44, G:0.35, T:0.02
Consensus pattern (15 bp):
CCGAGCCGAGCCGCA
Found at i:8829291 original size:17 final size:17
Alignment explanation
Indices: 8829269--8829301 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8829259 CCAGGTTTTT
*
8829269 TTTTTTTTTTTTTTGAA
1 TTTTTTTTTTATTTGAA
8829286 TTTTTTTTTTATTTGA
1 TTTTTTTTTTATTTGA
8829302 CTTTGATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTTATTTGAA
Found at i:8829576 original size:155 final size:157
Alignment explanation
Indices: 8829330--8829632 Score: 502
Period size: 155 Copynumber: 1.9 Consensus size: 157
8829320 TTTTTTTTCT
*
8829330 TTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATACT
1 TTTTTCTTTAAATAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATACT
* * *
8829395 CCTGAGGTGAGGGAATTTTCTCAATTTTTTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
66 CCTGAGGTGAGCGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
* *
8829460 GATAATTAATTAATTGGTTGATCTTGA
131 AATAACTAATTAATTGGTTGATCTTGA
**
8829487 TTTTTCTTTAAATAATCCGACGACGGAGCCTCTGTAAGT-AAAACAGTAG-TTTTCTTGCATACT
1 TTTTTCTTTAAATAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATACT
*
8829550 CCTGAGGTGAGCGAATTTTTTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
66 CCTGAGGTGAGCGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
*
8829615 AATAACTAATTACTTGGT
131 AATAACTAATTAATTGGT
8829633 AAAATTTTAA
Statistics
Matches: 136, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
155 90 0.66
156 10 0.07
157 36 0.26
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.38
Consensus pattern (157 bp):
TTTTTCTTTAAATAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATACT
CCTGAGGTGAGCGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
AATAACTAATTAATTGGTTGATCTTGA
Found at i:8833297 original size:17 final size:17
Alignment explanation
Indices: 8833262--8833333 Score: 67
Period size: 16 Copynumber: 4.3 Consensus size: 17
8833252 GTGAAGAATG
** *
8833262 AAAAAAAAAGATGATGA
1 AAAAAAAAAGAAAAAGA
8833279 AAAAAAAAAGAAAAAG-
1 AAAAAAAAAGAAAAAGA
*
8833295 AAAAAGAAAGAAAGAAGA
1 AAAAAAAAAGAAA-AAGA
* *
8833313 AAAAATAAA-AAAATGA
1 AAAAAAAAAGAAAAAGA
8833329 AAAAA
1 AAAAA
8833334 TGAAAAAGAG
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
16 20 0.43
17 19 0.40
18 8 0.17
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.06
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAGA
Found at i:8833303 original size:23 final size:24
Alignment explanation
Indices: 8833277--8833342 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 24
8833267 AAAAGATGAT
8833277 GAAAAAAAAAAGAAAAAGA-AAAA
1 GAAAAAAAAAAGAAAAAGATAAAA
* *
8833300 GAAAGAAAGAAGAAAAA-ATAAAA
1 GAAAAAAAAAAGAAAAAGATAAAA
*
8833323 -AAATGAAAAAATGAAAAAGA
1 GAAA--AAAAAAAGAAAAAGA
8833343 GATCCAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
22 4 0.12
23 19 0.56
24 10 0.29
25 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (24 bp):
GAAAAAAAAAAGAAAAAGATAAAA
Found at i:8833323 original size:8 final size:8
Alignment explanation
Indices: 8833311--8833340 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
8833301 AAAGAAAGAA
8833311 GAAAAAAT
1 GAAAAAAT
*
8833319 AAAAAAAT
1 GAAAAAAT
8833327 GAAAAAAT
1 GAAAAAAT
8833335 GAAAAA
1 GAAAAA
8833341 GAGATCCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (8 bp):
GAAAAAAT
Found at i:8833637 original size:16 final size:16
Alignment explanation
Indices: 8833597--8833639 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
8833587 ATGACATCCA
*
8833597 ATTTATTTCCTTTCCC
1 ATTTATTTTCTTTCCC
8833613 ATTTATTTTCTTTCCC
1 ATTTATTTTCTTTCCC
8833629 ATTTATTTTCT
1 ATTTATTTTCT
8833640 ACCAAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.14, C:0.23, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTATTTTCTTTCCC
Found at i:8834671 original size:40 final size:38
Alignment explanation
Indices: 8834579--8834671 Score: 102
Period size: 37 Copynumber: 2.5 Consensus size: 38
8834569 TCGTTGCTGT
* *
8834579 CTCTGTTTAGAGGAGC-ATTTACTTTCAAAATCTGTAC
1 CTCTGTTTAGAGGAGCAAATTACTTTCAAAATCGGTAC
* * *
8834616 CT-TG-TTAGAGAAGCAAATTACTTTTCAAAGTCGGTTGC
1 CTCTGTTTAGAGGAGCAAATTAC-TTTCAAAATCGG-TAC
8834654 CTCTGTTTAGAGGAGCAA
1 CTCTGTTTAGAGGAGCAA
8834672 GTCTTTTCGA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
35 9 0.20
36 7 0.16
37 12 0.27
38 4 0.09
39 2 0.04
40 11 0.24
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (38 bp):
CTCTGTTTAGAGGAGCAAATTACTTTCAAAATCGGTAC
Found at i:8834862 original size:39 final size:39
Alignment explanation
Indices: 8834716--8834964 Score: 342
Period size: 39 Copynumber: 6.6 Consensus size: 39
8834706 CCTTTAAGAA
*
8834716 AGCAATTTACTTTCCAAAGTCGTG--CTC--TTTAGA-G
1 AGCAATTTACTTTTCAAAGTCGTGTCCTCTGTTTAGAGG
*
8834750 AGCAATTTATTTGTTC---GT--TG-CCTCTGTTTAGAGG
1 AGCAATTTACTT-TTCAAAGTCGTGTCCTCTGTTTAGAGG
8834784 AGCAATTTACTTTTCAAAGTCGTGGTCCTCTGTTTAGAGG
1 AGCAATTTACTTTTCAAAGTCGT-GTCCTCTGTTTAGAGG
8834824 AGCAATTTACTTTTCAAAGTCGTGTCCTCTGTTTAGAGG
1 AGCAATTTACTTTTCAAAGTCGTGTCCTCTGTTTAGAGG
8834863 AGCAATTTACTTTTCAAAGTCGTGTCCTCTGTTTAGAGG
1 AGCAATTTACTTTTCAAAGTCGTGTCCTCTGTTTAGAGG
*
8834902 AGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGG
1 AGCAATTTACTTTTCAAAGTCGT-GT-CCTCTGTTTAGAGG
*
8834943 AGCAA-TTATTTTTCAAAGTCGT
1 AGCAATTTACTTTTCAAAGTCGT
8834965 AGAGCCTCTG
Statistics
Matches: 195, Mismatches: 6, Indels: 22
0.87 0.03 0.10
Matches are distributed among these distances:
30 2 0.01
31 3 0.02
32 2 0.01
33 9 0.05
34 23 0.12
35 2 0.01
36 2 0.01
38 1 0.01
39 78 0.40
40 54 0.28
41 19 0.10
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (39 bp):
AGCAATTTACTTTTCAAAGTCGTGTCCTCTGTTTAGAGG
Found at i:8834868 original size:79 final size:80
Alignment explanation
Indices: 8834768--8834964 Score: 346
Period size: 79 Copynumber: 2.5 Consensus size: 80
8834758 ATTTGTTCGT
8834768 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTCCTCTGTTTAGAGGAGCAATTTA
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT-GTCCTCTGTTTAGAGGAGCAATTTA
*
8834833 CTTTTCAAAGTCGT-G
65 CTTTCCAAAGTCGTGG
8834848 T-CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGTCCTCTGTTTAGAGGAGCAATTTAC
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGTCCTCTGTTTAGAGGAGCAATTTAC
8834912 TTTCCAAAGTCGTGG
66 TTTCCAAAGTCGTGG
*
8834927 TGCCTCTGTTTAGAGGAGCAA-TTATTTTTCAAAGTCGT
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT
8834965 AGAGCCTCTG
Statistics
Matches: 113, Mismatches: 2, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
78 38 0.34
79 55 0.49
80 20 0.18
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (80 bp):
TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGTCCTCTGTTTAGAGGAGCAATTTAC
TTTCCAAAGTCGTGG
Found at i:8835151 original size:20 final size:19
Alignment explanation
Indices: 8835117--8835160 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
8835107 TCAGGTCCGG
*
8835117 GCCCGGATCAATTGGGCCT
1 GCCCAGATCAATTGGGCCT
*
8835136 GACCCAGATCATTTGGGCCT
1 G-CCCAGATCAATTGGGCCT
8835156 GCCCA
1 GCCCA
8835161 AATGGGCAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.18, C:0.34, G:0.27, T:0.20
Consensus pattern (19 bp):
GCCCAGATCAATTGGGCCT
Found at i:8835482 original size:12 final size:12
Alignment explanation
Indices: 8835455--8835487 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
8835445 ATCTAGATTT
8835455 ATTTTT-TTTTA
1 ATTTTTATTTTA
8835466 A-TTTTATTTTA
1 ATTTTTATTTTA
8835477 ATTTTTATTTT
1 ATTTTTATTTT
8835488 GGAGGGCTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 4 0.20
11 7 0.35
12 9 0.45
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
ATTTTTATTTTA
Found at i:8835838 original size:31 final size:31
Alignment explanation
Indices: 8835803--8835873 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
8835793 AATTTCCAGA
*
8835803 TTCCGGCGAAAATTCCGGCG-ACTTTTGAATT
1 TTCCGGCGAAAATTCCGGCGAAC-TTTGAAGT
* *
8835834 TTCCGGTGACAATTCCGGCGAACTTTGAAGT
1 TTCCGGCGAAAATTCCGGCGAACTTTGAAGT
8835865 TTCCGGCGA
1 TTCCGGCGA
8835874 CAGACCCAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 33 0.94
32 2 0.06
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.30
Consensus pattern (31 bp):
TTCCGGCGAAAATTCCGGCGAACTTTGAAGT
Found at i:8835961 original size:19 final size:19
Alignment explanation
Indices: 8835937--8835981 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
8835927 TCCGGCCAAT
8835937 TTCCGGCGAAATTCCCAGA
1 TTCCGGCGAAATTCCCAGA
*
8835956 TTCCGGCGAAATTTCCAGA
1 TTCCGGCGAAATTCCCAGA
*
8835975 ATCCGGC
1 TTCCGGC
8835982 ACCGGCGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.22
Consensus pattern (19 bp):
TTCCGGCGAAATTCCCAGA
Found at i:8836211 original size:5 final size:5
Alignment explanation
Indices: 8836201--8836238 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
8836191 TTCAGCCCCT
*
8836201 CCGAG CCGAG CCGAG CCGAG CCGCA- CCAAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCG-AG CCGAG CCGAG CCG
8836239 CGATCCGAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 1 0.03
5 27 0.93
6 1 0.03
ACGTcount: A:0.21, C:0.45, G:0.34, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:8836278 original size:10 final size:10
Alignment explanation
Indices: 8836265--8836291 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
8836255 AGGTTTTTTT
8836265 TTTTTTTGAA
1 TTTTTTTGAA
8836275 TTTTTTTGAA
1 TTTTTTTGAA
8836285 TTTTTTT
1 TTTTTTT
8836292 TTTATTTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:8836624 original size:155 final size:157
Alignment explanation
Indices: 8836329--8836631 Score: 520
Period size: 155 Copynumber: 1.9 Consensus size: 157
8836319 TTTTTTTTCT
*
8836329 TTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATACT
1 TTTTTCTTTAAATAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATACT
*
8836394 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
66 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
* *
8836459 GATAATTAATTAATTGGTTGATCTTGA
131 AATAACTAATTAATTGGTTGATCTTGA
**
8836486 TTTTTCTTTAAATAATCCGACGACGGAGCCTCTGTAAGT-AAAACAGTAG-TTTTCTTGCATACT
1 TTTTTCTTTAAATAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATACT
*
8836549 CCTGAGGTGAGGGAATTTTTTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
66 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
*
8836614 AATAACTAATTACTTGGT
131 AATAACTAATTAATTGGT
8836632 AAAATTTTAA
Statistics
Matches: 138, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
155 92 0.67
156 10 0.07
157 36 0.26
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.38
Consensus pattern (157 bp):
TTTTTCTTTAAATAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATACT
CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
AATAACTAATTAATTGGTTGATCTTGA
Found at i:8840940 original size:6 final size:6
Alignment explanation
Indices: 8840924--8840957 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
8840914 TATAACAACA
8840924 AAATG- AAATGC AAATGC AAATGC AAATGC AAATG
1 AAATGC AAATGC AAATGC AAATGC AAATGC AAATG
8840958 TATGAATAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.53, C:0.12, G:0.18, T:0.18
Consensus pattern (6 bp):
AAATGC
Found at i:8842356 original size:19 final size:21
Alignment explanation
Indices: 8842318--8842357 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
8842308 ATTTTGAAAA
*
8842318 TTGACCTAAATTTAATCCAAT
1 TTGACCTAAATTTAAACCAAT
8842339 TTGA-CTAAA-TTAAACCAAT
1 TTGACCTAAATTTAAACCAAT
8842358 ATCAAATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 5 0.28
21 4 0.22
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.35
Consensus pattern (21 bp):
TTGACCTAAATTTAAACCAAT
Found at i:8843697 original size:38 final size:38
Alignment explanation
Indices: 8843645--8843865 Score: 164
Period size: 38 Copynumber: 6.2 Consensus size: 38
8843635 TTTTGTCATA
8843645 ACATATG--TGTTAAATATTATGCTATTTAATATAATT
1 ACATATGTATGTTAAATATTATGCTATTTAATATAATT
* *
8843681 ACCTATGTATGTTAAATATTATGCTATTTAATATATTT
1 ACATATGTATGTTAAATATTATGCTATTTAATATAATT
* ** * * *
8843719 AAATAT-TA-AAT-ATTTTTATGCTATTTAACAT-ATT
1 ACATATGTATGTTAAATATTATGCTATTTAATATAATT
* ** * * * *
8843753 ---GATGCTA-GTTAAAT-TT-TTTTGTTT--TGTCATA
1 ACATATG-TATGTTAAATATTATGCTATTTAATATAATT
*
8843784 ACATATGTGTGTTAAATATTATGCTATTTAATATAATT
1 ACATATGTATGTTAAATATTATGCTATTTAATATAATT
* *
8843822 ACCTATGTATGTTAAATATTATGCTATTTAATATATTT
1 ACATATGTATGTTAAATATTATGCTATTTAATATAATT
*
8843860 AAATAT
1 ACATAT
8843866 TAAATATTTT
Statistics
Matches: 138, Mismatches: 33, Indels: 26
0.70 0.17 0.13
Matches are distributed among these distances:
30 1 0.01
31 4 0.03
32 5 0.04
33 6 0.04
34 14 0.10
35 19 0.14
36 12 0.09
37 2 0.01
38 75 0.54
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (38 bp):
ACATATGTATGTTAAATATTATGCTATTTAATATAATT
Found at i:8843880 original size:141 final size:139
Alignment explanation
Indices: 8843622--8843924 Score: 581
Period size: 141 Copynumber: 2.2 Consensus size: 139
8843612 TAATATGTGT
8843622 GTTAAA-TTTTTTGTTTTGTCATAACATATGTGTTAAATATTATGCTATTTAATATAATTACCTA
1 GTTAAATTTTTTTGTTTTGTCATAACATATGTGTTAAATATTATGCTATTTAATATAATTACCTA
8843686 TGTATGTTAAATATTATGCTATTTAATATATTTAAATATTAAATATTTTTATGCTATTTAACATA
66 TGTATGTTAAATATTATGCTATTTAATATATTTAAATATTAAATATTTTTATGCTATTTAACATA
8843751 TTGATGCTA
131 TTGATGCTA
8843760 GTTAAATTTTTTTGTTTTGTCATAACATATGTGTGTTAAATATTATGCTATTTAATATAATTACC
1 GTTAAATTTTTTTGTTTTGTCATAACATA--TGTGTTAAATATTATGCTATTTAATATAATTACC
8843825 TATGTATGTTAAATATTATGCTATTTAATATATTTAAATATTAAATATTTTTATGCTATTTAACA
64 TATGTATGTTAAATATTATGCTATTTAATATATTTAAATATTAAATATTTTTATGCTATTTAACA
8843890 TATTGATGCTA
129 TATTGATGCTA
8843901 GTTAAATTTTTTTGTTTTGTCATA
1 GTTAAATTTTTTTGTTTTGTCATA
8843925 TGTATTTATC
Statistics
Matches: 162, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
138 6 0.04
139 22 0.14
141 134 0.83
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.51
Consensus pattern (139 bp):
GTTAAATTTTTTTGTTTTGTCATAACATATGTGTTAAATATTATGCTATTTAATATAATTACCTA
TGTATGTTAAATATTATGCTATTTAATATATTTAAATATTAAATATTTTTATGCTATTTAACATA
TTGATGCTA
Found at i:8843910 original size:35 final size:34
Alignment explanation
Indices: 8843685--8843911 Score: 119
Period size: 35 Copynumber: 6.5 Consensus size: 34
8843675 ATAATTACCT
* * *
8843685 ATGTATGTTAAA-TATTATGCTATTTAATATATTT
1 ATGTA-GTTAAATTTTTATGCTATTTAACATATTG
**
8843719 AAATA-TTAAATATTTTTATGCTATTTAACATATTG
1 ATGTAGTT-AA-ATTTTTATGCTATTTAACATATTG
* * *
8843754 ATGCTAGTTAAATTTTTTTGTTTTGTCATAACATA-TG
1 ATG-TAGTTAAATTTTTATGCTAT-T--TAACATATTG
* * *
8843791 -TGT-GTTAAA-TATTATGCTATTTAATATAATTACCT
1 ATGTAGTTAAATTTTTATGCTATTTAACAT-ATT---G
* * *
8843826 ATGTATGTTAAA-TATTATGCTATTTAATATATTT
1 ATGTA-GTTAAATTTTTATGCTATTTAACATATTG
**
8843860 AAATA-TTAAATATTTTTATGCTATTTAACATATTG
1 ATGTAGTT-AA-ATTTTTATGCTATTTAACATATTG
8843895 ATGCTAGTTAAATTTTT
1 ATG-TAGTTAAATTTTT
8843912 TTGTTTTGTC
Statistics
Matches: 149, Mismatches: 23, Indels: 41
0.70 0.11 0.19
Matches are distributed among these distances:
30 5 0.03
31 1 0.01
32 6 0.04
33 11 0.07
34 15 0.10
35 57 0.38
36 14 0.09
37 9 0.06
38 31 0.21
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.51
Consensus pattern (34 bp):
ATGTAGTTAAATTTTTATGCTATTTAACATATTG
Found at i:8844092 original size:11 final size:11
Alignment explanation
Indices: 8844074--8844110 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
8844064 ATGAAAAATT
8844074 GAAAAATAAAA
1 GAAAAATAAAA
*
8844085 GCAAAATAAAA
1 GAAAAATAAAA
8844096 GAAAAATAAAA
1 GAAAAATAAAA
8844107 -AAAA
1 GAAAA
8844111 CTTATAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 4 0.17
11 20 0.83
ACGTcount: A:0.81, C:0.03, G:0.08, T:0.08
Consensus pattern (11 bp):
GAAAAATAAAA
Found at i:8844938 original size:16 final size:16
Alignment explanation
Indices: 8844919--8844969 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
8844909 TTATTTAAAT
8844919 AAAAATAAAAAAAGAA
1 AAAAATAAAAAAAGAA
*
8844935 AAAAATTGAAAAAAGAA
1 AAAAA-TAAAAAAAGAA
*
8844952 AAGAAACAAAAAAA-AA
1 AA-AAATAAAAAAAGAA
8844968 AA
1 AA
8844970 TGTGATACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 9 0.30
17 18 0.60
18 3 0.10
ACGTcount: A:0.84, C:0.02, G:0.08, T:0.06
Consensus pattern (16 bp):
AAAAATAAAAAAAGAA
Found at i:8844940 original size:22 final size:22
Alignment explanation
Indices: 8844915--8844969 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
8844905 AAATTTATTT
8844915 AAATAAAAATAAAAAAAGAAA-A
1 AAATAAAAA-AAAAAAAGAAACA
* *
8844937 AAATTGAAAAAAGAAAAGAAACA
1 AAA-TAAAAAAAAAAAAGAAACA
8844960 AAA-AAAAAAA
1 AAATAAAAAAA
8844970 TGTGATACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 6 0.21
22 13 0.46
23 9 0.32
ACGTcount: A:0.84, C:0.02, G:0.07, T:0.07
Consensus pattern (22 bp):
AAATAAAAAAAAAAAAGAAACA
Found at i:8845165 original size:20 final size:20
Alignment explanation
Indices: 8845112--8845170 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
8845102 TAACTTTATT
8845112 AATATAATAT-ATAAATATAA
1 AATATAATATAAT-AATATAA
*
8845132 AAT-TGAATAAAATAATATAA
1 AATAT-AATATAATAATATAA
*
8845152 AATATAATTTAAT-ATATAA
1 AATATAATATAATAATATAA
8845171 TCAAAGAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 7 0.21
20 23 0.70
21 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
AATATAATATAATAATATAA
Found at i:8845652 original size:20 final size:21
Alignment explanation
Indices: 8845609--8845653 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
8845599 GATTTATATC
* * *
8845609 TTTTGTTTTTATTTTAAATTA
1 TTTTCTTTTTATATTAAATAA
8845630 TTTTCTTTTTATATT-AATAA
1 TTTTCTTTTTATATTAAATAA
8845650 TTTT
1 TTTT
8845654 TTGAGATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTCTTTTTATATTAAATAA
Found at i:8847039 original size:16 final size:16
Alignment explanation
Indices: 8847020--8847054 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8847010 TTATTTATTT
* *
8847020 ATTTTTTATTAAATAA
1 ATTTTTTAATAAAAAA
8847036 ATTTTTTAATAAAAAA
1 ATTTTTTAATAAAAAA
8847052 ATT
1 ATT
8847055 AATTAGGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTTTTAATAAAAAA
Found at i:8847941 original size:23 final size:23
Alignment explanation
Indices: 8847915--8847958 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
8847905 GCACATTTTC
8847915 TTTCATTT-TTTAATTTTATTTAT
1 TTTCATTTCTTTAA-TTTATTTAT
* *
8847938 TTTCCTTTCTTTCATTTATTT
1 TTTCATTTCTTTAATTTATTT
8847959 TTCATCTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTCATTTCTTTAATTTATTTAT
Found at i:8856589 original size:2 final size:2
Alignment explanation
Indices: 8856582--8856637 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
8856572 ATTGTTGGGG
8856582 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
8856624 CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT
8856638 GTTTGAGTGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:8856933 original size:52 final size:53
Alignment explanation
Indices: 8856824--8856935 Score: 163
Period size: 52 Copynumber: 2.1 Consensus size: 53
8856814 CAATTATAAG
* ** * *
8856824 GTGTATTTTCCTTTCATTTTGGTTGGGAAAAAAGGATGCTAATATAATAAGCT
1 GTGTATTTTCCTTTCACTTTAATTGGGAAAAAAGGATACTAATATAATAAGCC
*
8856877 GTGTATTTTCCTTTCGCTTTAATTGGG-AAAAAGGATACTAATATAATAAGCC
1 GTGTATTTTCCTTTCACTTTAATTGGGAAAAAAGGATACTAATATAATAAGCC
8856929 GTGTATT
1 GTGTATT
8856936 CAGTATCAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 30 0.57
53 23 0.43
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (53 bp):
GTGTATTTTCCTTTCACTTTAATTGGGAAAAAAGGATACTAATATAATAAGCC
Found at i:8858296 original size:29 final size:31
Alignment explanation
Indices: 8858246--8858305 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 31
8858236 AAAATTAAAT
* * *
8858246 AATTTAAATTTTTATTACATA-TAAATTTTA
1 AATTAAAATTTTTAATACATATTAAAATTTA
*
8858276 AATTAAAATTTTTAAT-GATATTAAAATTTA
1 AATTAAAATTTTTAATACATATTAAAATTTA
8858306 TTTCATTATC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (31 bp):
AATTAAAATTTTTAATACATATTAAAATTTA
Found at i:8858502 original size:2 final size:2
Alignment explanation
Indices: 8858495--8858536 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
8858485 AAACACGATT
*
8858495 TA TA TA TA TA TA TA TA TA TA TA AA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8858536 T
1 T
8858537 TTTGCATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8858562 original size:17 final size:18
Alignment explanation
Indices: 8858536--8858569 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8858526 ATATATTATA
*
8858536 TTTTGCATT-ATTAAATT
1 TTTTGAATTAATTAAATT
8858553 TTTTGAATTAATTAAAT
1 TTTTGAATTAATTAAAT
8858570 AAAGAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTTGAATTAATTAAATT
Found at i:8861428 original size:28 final size:27
Alignment explanation
Indices: 8861397--8861449 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
8861387 AATAAAAATG
8861397 AAAA-TTTTAAATAATTAAAAATGAAAGA
1 AAAATTTTTAAA-AA-TAAAAATGAAAGA
*
8861425 AAAATTTTTTAAAATAAAAATGAAA
1 AAAATTTTTAAAAATAAAAATGAAA
8861450 ATGAATTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 11 0.48
28 6 0.26
29 6 0.26
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (27 bp):
AAAATTTTTAAAAATAAAAATGAAAGA
Found at i:8861879 original size:22 final size:21
Alignment explanation
Indices: 8861847--8861895 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
8861837 TTCCTTCACC
8861847 AAATACATTTTTCGAA-AAACAA
1 AAATA-ATTTTTC-AACAAACAA
*
8861869 AAATAATTTTTCAACAAATAA
1 AAATAATTTTTCAACAAACAA
8861890 AAATAA
1 AAATAA
8861896 AATAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 2 0.08
21 18 0.72
22 5 0.20
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.29
Consensus pattern (21 bp):
AAATAATTTTTCAACAAACAA
Found at i:8862333 original size:22 final size:23
Alignment explanation
Indices: 8862298--8862346 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
8862288 ATTTTAATTT
*
8862298 AAATCTATTTAAAT-ATA-ATAA
1 AAATCTATTAAAATAATATATAA
8862319 AAATCATATTAAAATAATATATAA
1 AAATC-TATTAAAATAATATATAA
8862343 AAAT
1 AAAT
8862347 AAAAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 5 0.21
22 8 0.33
23 3 0.12
24 8 0.33
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (23 bp):
AAATCTATTAAAATAATATATAA
Found at i:8862354 original size:25 final size:25
Alignment explanation
Indices: 8862309--8862356 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
8862299 AATCTATTTA
* *
8862309 AATATAATAAAAATCATATTAAAAT
1 AATATAATAAAAATAAAATTAAAAT
8862334 AATAT-ATAAAAATAAAAATTAAA
1 AATATAATAAAAAT-AAAATTAAA
8862357 TTTTAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (25 bp):
AATATAATAAAAATAAAATTAAAAT
Found at i:8862821 original size:3 final size:3
Alignment explanation
Indices: 8862813--8862846 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
8862803 AATTCTTAAT
8862813 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8862847 AAATAAGAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8863554 original size:25 final size:25
Alignment explanation
Indices: 8863520--8863583 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
8863510 TATTTTTTAT
*
8863520 AATTAAATAATAATAAAATTAAAAA
1 AATTTAATAATAATAAAATTAAAAA
**
8863545 AATTTAATAATAATAAAATTTTAAA
1 AATTTAATAATAATAAAATTAAAAA
8863570 AATTATAAGTAATA
1 AATT-TAA-TAATA
8863584 TGCTCTCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 26 0.76
26 3 0.09
27 5 0.15
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (25 bp):
AATTTAATAATAATAAAATTAAAAA
Found at i:8863577 original size:17 final size:17
Alignment explanation
Indices: 8863534--8863577 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
8863524 AAATAATAAT
*
8863534 AAAATTAAAAAAATTTA
1 AAAATTATAAAAATTTA
* * *
8863551 ATAATAATAAAATTTTA
1 AAAATTATAAAAATTTA
8863568 AAAATTATAA
1 AAAATTATAA
8863578 GTAATATGCT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATTTA
Found at i:8865100 original size:24 final size:24
Alignment explanation
Indices: 8865073--8865119 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
8865063 ATTTGGGGTG
8865073 AGGTATTTTCGTTATTTAATAAAA
1 AGGTATTTTCGTTATTTAATAAAA
*
8865097 AGGTATTTTCGTTATTTAGTAAA
1 AGGTATTTTCGTTATTTAATAAA
8865120 GACTAAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AGGTATTTTCGTTATTTAATAAAA
Found at i:8867142 original size:2 final size:2
Alignment explanation
Indices: 8867135--8867159 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8867125 TTAAATGAAG
8867135 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8867160 TCCTCAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8867494 original size:27 final size:29
Alignment explanation
Indices: 8867458--8867525 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
8867448 TTAAATAAAT
*
8867458 TTTTATATTTTTA-TTATATTCAAATA-A
1 TTTTATATTTTAATTTATATTCAAATATA
*
8867485 TTTTATATTTTAATTTATATTTAAATATA
1 TTTTATATTTTAATTTATATTCAAATATA
*
8867514 TCTT-TATTTTAA
1 TTTTATATTTTAA
8867526 ATGAAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 12 0.33
28 20 0.56
29 4 0.11
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (29 bp):
TTTTATATTTTAATTTATATTCAAATATA
Found at i:8867596 original size:32 final size:30
Alignment explanation
Indices: 8867550--8867705 Score: 156
Period size: 30 Copynumber: 5.1 Consensus size: 30
8867540 TATGTTAAGT
*
8867550 ATTTACTTAAATACAAATTTAAAAAATTAAAA
1 ATTTATTTAAATACAAA-TT-AAAAATTAAAA
*
8867582 ATTTATTTAGATACAAATTAAAAATTAAAA
1 ATTTATTTAAATACAAATTAAAAATTAAAA
* * *
8867612 ATTTATTTAAGTATAAATTAAATATTAAAA
1 ATTTATTTAAATACAAATTAAAAATTAAAA
* * *
8867642 TTTTATCTAAATA-TAA-TAAAAATATAAAA
1 ATTTATTTAAATACAAATTAAAAAT-TAAAA
* *
8867671 ATTTATCTAAATA-AAATTATAAATTTAAGAA
1 ATTTATTTAAATACAAATTA-AAAATTAA-AA
8867702 ATTT
1 ATTT
8867706 TTTTTATCAA
Statistics
Matches: 106, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
28 6 0.06
29 21 0.20
30 52 0.49
31 12 0.11
32 15 0.14
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (30 bp):
ATTTATTTAAATACAAATTAAAAATTAAAA
Found at i:8867928 original size:20 final size:20
Alignment explanation
Indices: 8867912--8867959 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
8867902 CTAATGTGAG
8867912 GTTGACTTCAATGATGTGGT
1 GTTGACTTCAATGATGTGGT
*
8867932 GTTGACTTTAATGATGTGGT
1 GTTGACTTCAATGATGTGGT
*
8867952 ATTGACTT
1 GTTGACTT
8867960 GTTAATATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.21, C:0.08, G:0.27, T:0.44
Consensus pattern (20 bp):
GTTGACTTCAATGATGTGGT
Found at i:8868124 original size:19 final size:19
Alignment explanation
Indices: 8868079--8868126 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
8868069 GGAGTTGATT
* *
8868079 TTTGTTATTACTGTTATTA
1 TTTGTTATTACTATTAGTA
*
8868098 TTCT-TTATTAGTATTAGTA
1 TT-TGTTATTACTATTAGTA
8868117 TTTGTTATTA
1 TTTGTTATTA
8868127 TTATGGTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 1 0.04
19 22 0.92
20 1 0.04
ACGTcount: A:0.23, C:0.04, G:0.10, T:0.62
Consensus pattern (19 bp):
TTTGTTATTACTATTAGTA
Found at i:8868129 original size:3 final size:3
Alignment explanation
Indices: 8868092--8868217 Score: 55
Period size: 3 Copynumber: 41.7 Consensus size: 3
8868082 GTTATTACTG
* * * * **
8868092 TTA TTA TTCT TTA TTA GTA TTA GTA TTTG TTA TTA TTA TGG TT- TTA
1 TTA TTA TT-A TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
* * * * *
8868138 -TA TTA TCA TTA TTA TTA -TA GTA -TA GTGTA TCA TTA TAA TATA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -T-TA TTA TTA TTA T-TA TTA
*
8868183 TTA -TA TTA TATG TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TT
8868218 TTCTATTTTC
Statistics
Matches: 91, Mismatches: 21, Indels: 22
0.68 0.16 0.16
Matches are distributed among these distances:
2 10 0.11
3 72 0.79
4 7 0.08
5 2 0.02
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:8869055 original size:25 final size:24
Alignment explanation
Indices: 8869008--8869055 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
8868998 CCGATTGTAG
**
8869008 ATTTTTTTTAATTTTTATTTTATA
1 ATTTTTTTTAATTTTTAGCTTATA
*
8869032 ATTTTATTTTATTTTTTAGCTTAT
1 ATTTT-TTTTAATTTTTAGCTTAT
8869056 TTTATTTTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (24 bp):
ATTTTTTTTAATTTTTAGCTTATA
Found at i:8869057 original size:22 final size:21
Alignment explanation
Indices: 8869032--8869084 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
8869022 TTATTTTATA
8869032 ATTTTATTTTATTTTTTAGCTT
1 ATTTTATTTTATTTTTTAG-TT
*
8869054 ATTTTATTTT-GTTTTTAGTT
1 ATTTTATTTTATTTTTTAGTT
*
8869074 -TTCTATTTTAT
1 ATTTTATTTTAT
8869085 CGATTTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 8 0.30
20 2 0.07
21 7 0.26
22 10 0.37
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.74
Consensus pattern (21 bp):
ATTTTATTTTATTTTTTAGTT
Found at i:8869429 original size:104 final size:104
Alignment explanation
Indices: 8869312--8869548 Score: 339
Period size: 104 Copynumber: 2.3 Consensus size: 104
8869302 TATCATATTA
* * *
8869312 TTTTTTAAATTAAGTTATACCAAATTATTAAGAGACTTAATGAAATTCACAAAAATTTTTACAAA
1 TTTTTCAAATTAAGTTATACCAAACTATTAAGAGACTTAATGAAATTCACAAAAAATTTTACAAA
* *
8869377 TCTTTTTACAATAAAATCTCACAAAACTATTGGGATATC
66 TCTTTTTACAATAAAATCTCACAAAACTATTGAGAAATC
** * *
8869416 TTTTTCAAATTAAGTCCTATCAAACTATAAAGAGACTTAATGAAATTCACAAAAAATTTTACAAA
1 TTTTTCAAATTAAGTTATACCAAACTATTAAGAGACTTAATGAAATTCACAAAAAATTTTACAAA
* *
8869481 TCTTTTTACAATAAAATCTCACCAAATTATTGAGAAATC
66 TCTTTTTACAATAAAATCTCACAAAACTATTGAGAAATC
** * *
8869520 TACTTCAAAGTAAGTTATACTAAACTATT
1 TTTTTCAAATTAAGTTATACCAAACTATT
8869549 GTGAGATTTT
Statistics
Matches: 114, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
104 114 1.00
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (104 bp):
TTTTTCAAATTAAGTTATACCAAACTATTAAGAGACTTAATGAAATTCACAAAAAATTTTACAAA
TCTTTTTACAATAAAATCTCACAAAACTATTGAGAAATC
Found at i:8872000 original size:23 final size:23
Alignment explanation
Indices: 8871974--8872017 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
8871964 ATTAATTAAT
* *
8871974 TAATTTTATATTTATATTAAAAA
1 TAATATTATATTAATATTAAAAA
*
8871997 TAATATTATATTAATTTTAAA
1 TAATATTATATTAATATTAAA
8872018 TTAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TAATATTATATTAATATTAAAAA
Found at i:8873166 original size:26 final size:26
Alignment explanation
Indices: 8873119--8873172 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
8873109 TTAAATTCAG
* *
8873119 ATCTTGAGGTGATCGAAGTGAGATTT
1 ATCTTGAGATGATCGAAGTGAGACTT
8873145 ATCTTGAGATGATCG-AGATGAGACTT
1 ATCTTGAGATGATCGAAG-TGAGACTT
8873171 AT
1 AT
8873173 AAAATTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.33
Consensus pattern (26 bp):
ATCTTGAGATGATCGAAGTGAGACTT
Found at i:8873463 original size:25 final size:25
Alignment explanation
Indices: 8873434--8873489 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 25
8873424 TGACATAAAT
8873434 ATTAAA-ATATTGAAAATTATTTATG
1 ATTAAATATATTG-AAATTATTTATG
*
8873459 ATTAAAATATATTGAAATTATTTATT
1 ATT-AAATATATTGAAATTATTTATG
8873485 ATTAA
1 ATTAA
8873490 TATTCAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 5 0.18
26 17 0.61
27 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.46
Consensus pattern (25 bp):
ATTAAATATATTGAAATTATTTATG
Found at i:8873991 original size:13 final size:13
Alignment explanation
Indices: 8873975--8874015 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
8873965 TATTTATTAT
8873975 TAAAATA-AT-AA
1 TAAAATATATAAA
8873986 TATAAATATATAAA
1 TA-AAATATATAAA
*
8874000 TAAAATATAAAAA
1 TAAAATATATAAA
8874013 TAA
1 TAA
8874016 TATTTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 2 0.08
12 5 0.19
13 15 0.58
14 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
TAAAATATATAAA
Found at i:8886651 original size:32 final size:32
Alignment explanation
Indices: 8886615--8886681 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
8886605 TAATAATTAT
* *
8886615 ATAATAATAGATTCTTCATTAAATATATTTGC
1 ATAATAATAGATTCTTCATTAAATACATTAGC
8886647 ATAATAATAGATTCTTCATTAAATACATTAGC
1 ATAATAATAGATTCTTCATTAAATACATTAGC
8886679 ATA
1 ATA
8886682 TAAAACAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.40
Consensus pattern (32 bp):
ATAATAATAGATTCTTCATTAAATACATTAGC
Found at i:8886671 original size:16 final size:16
Alignment explanation
Indices: 8886620--8886671 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
8886610 ATTATATAAT
8886620 AATAGATTCTTCATTA
1 AATAGATTCTTCATTA
* * *
8886636 AATATATT-TGCATAA
1 AATAGATTCTTCATTA
8886651 TAATAGATTCTTCATTA
1 -AATAGATTCTTCATTA
8886668 AATA
1 AATA
8886672 CATTAGCATA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
15 5 0.18
16 18 0.64
17 5 0.18
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (16 bp):
AATAGATTCTTCATTA
Found at i:8888685 original size:16 final size:16
Alignment explanation
Indices: 8888664--8888697 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
8888654 CAATAAAAGC
8888664 AACACATAAAGTACAT
1 AACACATAAAGTACAT
8888680 AACACATAAAGTACAT
1 AACACATAAAGTACAT
8888696 AA
1 AA
8888698 GTTGATAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.59, C:0.18, G:0.06, T:0.18
Consensus pattern (16 bp):
AACACATAAAGTACAT
Found at i:8891147 original size:12 final size:14
Alignment explanation
Indices: 8891130--8891161 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8891120 TTTGATTGAA
8891130 TTTGAA-CT-AAAT
1 TTTGAACCTCAAAT
8891142 TTTGAACCTCAAAT
1 TTTGAACCTCAAAT
8891156 TTTGAA
1 TTTGAA
8891162 TTGAACTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 2 0.11
14 10 0.56
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (14 bp):
TTTGAACCTCAAAT
Found at i:8891583 original size:31 final size:29
Alignment explanation
Indices: 8891545--8891635 Score: 83
Period size: 31 Copynumber: 3.0 Consensus size: 29
8891535 TACAAATGAT
8891545 TTTTGTACTCATATGAAATTTGAAATTTAA
1 TTTTGTACTC-TATGAAATTTGAAATTTAA
* * * *
8891575 TTTATGTACTTGTACGAATTTTGAAATTTAG
1 TTT-TGTAC-TCTATGAAATTTGAAATTTAA
* *
8891606 TTCTTGTATTTCTATAAAATTTGAAATTTA
1 TT-TTGTA-CTCTATGAAATTTGAAATTTA
8891636 GTTCCTTTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
30 3 0.06
31 43 0.90
32 2 0.04
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.49
Consensus pattern (29 bp):
TTTTGTACTCTATGAAATTTGAAATTTAA
Found at i:8892804 original size:31 final size:31
Alignment explanation
Indices: 8892761--8892833 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
8892751 GTAAAGAAAT
*
8892761 TTAAATTT-AAATTTTATACAAATATAAGGA
1 TTAAATTTCAAATTTCATACAAATATAAGGA
* *
8892791 TTAAATTTCAAATTTCATGCAACTATAAGGA
1 TTAAATTTCAAATTTCATACAAATATAAGGA
*
8892822 CTAAATTTCAAA
1 TTAAATTTCAAA
8892834 ATTGATGTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
30 8 0.21
31 30 0.79
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.37
Consensus pattern (31 bp):
TTAAATTTCAAATTTCATACAAATATAAGGA
Found at i:8894681 original size:20 final size:19
Alignment explanation
Indices: 8894643--8894679 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8894633 CTTTTTCTCT
8894643 TATTTTCTTTAAATATTTA
1 TATTTTCTTTAAATATTTA
*
8894662 TATTTTCTTTTAATATTT
1 TATTTTCTTTAAATATTT
8894680 TAATATCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTTTCTTTAAATATTTA
Found at i:8895039 original size:17 final size:16
Alignment explanation
Indices: 8894994--8895039 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
8894984 TTTTTTTTTC
*
8894994 ATTTTTTTGTTTTCCA
1 ATTTTTTTATTTTCCA
*
8895010 ATTTTGTTCATTTTCCA
1 ATTTT-TTTATTTTCCA
8895027 ATTTTATTTATTT
1 ATTTT-TTTATTT
8895040 ATTATTTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.17, C:0.11, G:0.04, T:0.67
Consensus pattern (16 bp):
ATTTTTTTATTTTCCA
Found at i:8901263 original size:17 final size:19
Alignment explanation
Indices: 8901241--8901275 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
8901231 AAGTCGAGCT
8901241 ATTTTTT-ATTT-TTTTTC
1 ATTTTTTAATTTATTTTTC
8901258 ATTTTTTAATTTATTTTT
1 ATTTTTTAATTTATTTTT
8901276 ATGTGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 4 0.25
19 5 0.31
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (19 bp):
ATTTTTTAATTTATTTTTC
Found at i:8903333 original size:125 final size:125
Alignment explanation
Indices: 8903111--8903360 Score: 419
Period size: 125 Copynumber: 2.0 Consensus size: 125
8903101 CCTGCATATA
* *
8903111 GTCCACTTTTAAGAGGCCAGCCTCAAGATAAAGCCTTTCTTACCTATTAATAGATGTAATCCAAA
1 GTCCACTTTTAAGAGGCCAACCTCAAGATAAAGCCTTTCTTACCTATTAATAGATGTAACCCAAA
* *
8903176 ATTAGAACACAAGAAAGAACAACTTGTATATTGCTTATCTAACTATTTTGTTTGTTTGAT
66 ATTAGAACACAAGAAAGAACAACTTGTATATTGCTTATCTAACCATTTTATTTGTTTGAT
*
8903236 GTCCACTTTTAAGAGGCTAACCTCAAGATAAAGCCTTTCTTACCTATTAATAGATGTAACCCAAA
1 GTCCACTTTTAAGAGGCCAACCTCAAGATAAAGCCTTTCTTACCTATTAATAGATGTAACCCAAA
* * * *
8903301 ATTAGGACACAAGAAGGAATAACTTGTATATTGTTTATCTAACCATTTTATTTGTTTGAT
66 ATTAGAACACAAGAAAGAACAACTTGTATATTGCTTATCTAACCATTTTATTTGTTTGAT
8903361 TTTGTGCATC
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 116 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (125 bp):
GTCCACTTTTAAGAGGCCAACCTCAAGATAAAGCCTTTCTTACCTATTAATAGATGTAACCCAAA
ATTAGAACACAAGAAAGAACAACTTGTATATTGCTTATCTAACCATTTTATTTGTTTGAT
Found at i:8912784 original size:13 final size:12
Alignment explanation
Indices: 8912754--8912796 Score: 52
Period size: 11 Copynumber: 3.6 Consensus size: 12
8912744 TATTATACTT
8912754 GAAGAAAAAAAA
1 GAAGAAAAAAAA
*
8912766 GAA-AAAAAATA
1 GAAGAAAAAAAA
*
8912777 GAAGAAAAACAGA
1 GAAGAAAAA-AAA
8912790 GAAGAAA
1 GAAGAAA
8912797 TGAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 10 0.37
12 8 0.30
13 9 0.33
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (12 bp):
GAAGAAAAAAAA
Found at i:8913928 original size:42 final size:41
Alignment explanation
Indices: 8913813--8914006 Score: 225
Period size: 42 Copynumber: 4.7 Consensus size: 41
8913803 CGAGGAGCCT
* *
8913813 TTTATTTTTTCAAAAGTTGTGGTACCTCTGTTTAG-AGATGCAA
1 TTTA-TTTTTC-AAAGTTGTGGTGCCTCTATTTAGAAGA-GCAA
* *
8913856 TTTATTTTTCAAAGTTGTGGTGCTTATATTTAGAAGAGCAA
1 TTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGAAGAGCAA
* *
8913897 TTTATTTTTCATAAGTTGTGGTGCCTCTATTTAGAGGAGTAA
1 TTTATTTTTCA-AAGTTGTGGTGCCTCTATTTAGAAGAGCAA
**
8913939 TTTATTTTTCAAAGTTGTGGTG---CGGTTTAGAAGAGCAA
1 TTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGAAGAGCAA
* *
8913977 TTTATTTTTTAAAAGTTATGGTGCCTCTAT
1 TTTA-TTTTTCAAAGTTGTGGTGCCTCTAT
8914007 AAGTTGTGGT
Statistics
Matches: 129, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
38 16 0.12
39 16 0.12
41 45 0.35
42 48 0.37
43 4 0.03
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.45
Consensus pattern (41 bp):
TTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGAAGAGCAA
Found at i:8913957 original size:83 final size:80
Alignment explanation
Indices: 8913813--8914006 Score: 264
Period size: 83 Copynumber: 2.4 Consensus size: 80
8913803 CGAGGAGCCT
* *
8913813 TTTATTTTTTCAAAAGTTGTGGTACCTCTGTTTAGAGATGCAATTTATTTTTCAAAGTTGTGGTG
1 TTTA-TTTTTCAAAAGTTGTGGTGCCTCTATTTAGAGATGCAATTTATTTTTCAAAGTTGTGGTG
*
8913878 CTTATATTTAGAAGAGCAA
65 C---GATTTAGAAGAGCAA
* *
8913897 TTTATTTTTCATAAGTTGTGGTGCCTCTATTTAGAGGA-GTAATTTATTTTTCAAAGTTGTGGTG
1 TTTATTTTTCAAAAGTTGTGGTGCCTCTATTTAGA-GATGCAATTTATTTTTCAAAGTTGTGGTG
*
8913961 CGGTTTAGAAGAGCAA
65 CGATTTAGAAGAGCAA
* *
8913977 TTTATTTTTTAAAAGTTATGGTGCCTCTAT
1 TTTATTTTTCAAAAGTTGTGGTGCCTCTAT
8914007 AAGTTGTGGT
Statistics
Matches: 100, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
80 40 0.40
83 54 0.54
84 6 0.06
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.45
Consensus pattern (80 bp):
TTTATTTTTCAAAAGTTGTGGTGCCTCTATTTAGAGATGCAATTTATTTTTCAAAGTTGTGGTGC
GATTTAGAAGAGCAA
Found at i:8914016 original size:18 final size:18
Alignment explanation
Indices: 8913989--8914024 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
8913979 TATTTTTTAA
8913989 AAGTTATGGTGCCTCTAT
1 AAGTTATGGTGCCTCTAT
*
8914007 AAGTTGTGGTGCCTCTAT
1 AAGTTATGGTGCCTCTAT
8914025 TTAGAGGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (18 bp):
AAGTTATGGTGCCTCTAT
Found at i:8914076 original size:98 final size:98
Alignment explanation
Indices: 8913907--8914102 Score: 392
Period size: 98 Copynumber: 2.0 Consensus size: 98
8913897 TTTATTTTTC
8913907 ATAAGTTGTGGTGCCTCTATTTAGAGGAGTAATTTATTTTTCAAAGTTGTGGTGCGGTTTAGAAG
1 ATAAGTTGTGGTGCCTCTATTTAGAGGAGTAATTTATTTTTCAAAGTTGTGGTGCGGTTTAGAAG
8913972 AGCAATTTATTTTTTAAAAGTTATGGTGCCTCT
66 AGCAATTTATTTTTTAAAAGTTATGGTGCCTCT
8914005 ATAAGTTGTGGTGCCTCTATTTAGAGGAGTAATTTATTTTTCAAAGTTGTGGTGCGGTTTAGAAG
1 ATAAGTTGTGGTGCCTCTATTTAGAGGAGTAATTTATTTTTCAAAGTTGTGGTGCGGTTTAGAAG
8914070 AGCAATTTATTTTTTAAAAGTTATGGTGCCTCT
66 AGCAATTTATTTTTTAAAAGTTATGGTGCCTCT
8914103 GTTTAGAGGA
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.42
Consensus pattern (98 bp):
ATAAGTTGTGGTGCCTCTATTTAGAGGAGTAATTTATTTTTCAAAGTTGTGGTGCGGTTTAGAAG
AGCAATTTATTTTTTAAAAGTTATGGTGCCTCT
Found at i:8914097 original size:39 final size:38
Alignment explanation
Indices: 8914024--8914098 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 38
8914014 GGTGCCTCTA
* * * *
8914024 TTTAGAGGAGTAATTTATTTTTCAAAGTTGTGGTGCGG
1 TTTAGAAGAGCAATTTATTTTTAAAAGTTATGGTGCGG
8914062 TTTAGAAGAGCAATTTATTTTTTAAAAGTTATGGTGC
1 TTTAGAAGAGCAATTTA-TTTTTAAAAGTTATGGTGC
8914099 CTCTGTTTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 15 0.47
39 17 0.53
ACGTcount: A:0.28, C:0.05, G:0.24, T:0.43
Consensus pattern (38 bp):
TTTAGAAGAGCAATTTATTTTTAAAAGTTATGGTGCGG
Found at i:8914166 original size:41 final size:41
Alignment explanation
Indices: 8914007--8914173 Score: 191
Period size: 41 Copynumber: 4.1 Consensus size: 41
8913997 GTGCCTCTAT
* *
8914007 AAGTTGTGGTGCCTCTATTTAGAGGAGTAATTTA-TTTTTCA
1 AAGTTGTGGTGCCTCTGTTTAGAGGAG-CATTTATTTTTTCA
* * *
8914048 AAGTTGTGGTG---CGGTTTAGAAGAGCAATTTATTTTTTAA
1 AAGTTGTGGTGCCTCTGTTTAGAGGAGC-ATTTATTTTTTCA
* * *
8914087 AAGTTATGGTGCCTCTGTTTAGAGGAAC-TTTTTATTTTTCA
1 AAGTTGTGGTGCCTCTGTTTAGAGGAGCATTTAT-TTTTTCA
8914128 AAGTTGTGGTGCCTCTGTTTAGAGGAGCATTTATTTTTTTCA
1 AAGTTGTGGTGCCTCTGTTTAGAGGAGCATTTA-TTTTTTCA
8914170 AAGT
1 AAGT
8914174 CATTGAGCCT
Statistics
Matches: 104, Mismatches: 14, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
38 15 0.14
39 16 0.15
40 4 0.04
41 43 0.41
42 25 0.24
43 1 0.01
ACGTcount: A:0.24, C:0.10, G:0.23, T:0.44
Consensus pattern (41 bp):
AAGTTGTGGTGCCTCTGTTTAGAGGAGCATTTATTTTTTCA
Found at i:8914460 original size:5 final size:5
Alignment explanation
Indices: 8914450--8914513 Score: 58
Period size: 5 Copynumber: 11.8 Consensus size: 5
8914440 TTTTATGGGC
*
8914450 TTTAT TTTAT TTTAA TTTA- TTTAT TTTAATT TTTAT TTTAAT TTTGATT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT-A-T TTTAT TTT-AT TTT-A-T
8914499 TTTAT TTTCAT TTTA
1 TTTAT TTT-AT TTTA
8914514 GTTGATGATA
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
4 4 0.08
5 25 0.49
6 14 0.27
7 8 0.16
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:8914486 original size:12 final size:12
Alignment explanation
Indices: 8914454--8914513 Score: 75
Period size: 12 Copynumber: 4.8 Consensus size: 12
8914444 ATGGGCTTTA
8914454 TTTTATTTTAATT
1 TTTTATTTTAA-T
8914467 TATTTATTTTAAT
1 T-TTTATTTTAAT
8914480 TTTTATTTTAAT
1 TTTTATTTTAAT
* *
8914492 TTTGATTTTTAT
1 TTTTATTTTAAT
*
8914504 TTTCATTTTA
1 TTTTATTTTA
8914514 GTTGATGATA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
12 29 0.69
13 3 0.07
14 10 0.24
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (12 bp):
TTTTATTTTAAT
Found at i:8914499 original size:18 final size:18
Alignment explanation
Indices: 8914450--8914513 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
8914440 TTTTATGGGC
8914450 TTTATTTT-ATTTTAA--
1 TTTATTTTAATTTTAATT
8914465 TTTA-TTT-ATTTTAATT
1 TTTATTTTAATTTTAATT
*
8914481 TTTATTTTAATTTTGATT
1 TTTATTTTAATTTTAATT
*
8914499 TTTATTTTCATTTTA
1 TTTATTTTAATTTTA
8914514 GTTGATGATA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
14 10 0.24
15 4 0.10
16 4 0.10
17 3 0.07
18 21 0.50
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTATTTTAATTTTAATT
Found at i:8914501 original size:7 final size:6
Alignment explanation
Indices: 8914450--8914512 Score: 56
Period size: 6 Copynumber: 10.3 Consensus size: 6
8914440 TTTTATGGGC
* * * *
8914450 TTTA-T TTTATT TTAATTT ATTTATT TTAATT TTTATT TTAATT TTGATT
1 TTTATT TTTATT TTTA-TT -TTTATT TTTATT TTTATT TTTATT TTTATT
*
8914499 TTTATT TTCATT TT
1 TTTATT TTTATT TT
8914513 AGTTGATGAT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
5 4 0.09
6 36 0.77
7 4 0.09
8 3 0.06
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (6 bp):
TTTATT
Done.